New York Medical College


Mass Spectrometry Core Laboratory

Mass Spec FacilityMass spectrometry remains the state-of-the art methodology for quantitative analysis of eicosanoids and their derivatives as well as for structural identification of new lipid molecules. It provides adequate sensitivity, specificity, and selectivity required for detection and characterization of subpicomolar quantities of eicosanoids and other lipid mediators. No other technique of comparable sensitivity is currently available for their characterization and quantification. The centralized Mass Spectroscopy Core provides investigators with a consolidated, highly specialized, well equipped and professionally staffed unit capable of performing a variety of mass spectroscopy-based analyses of various eicosanoids and other lipid mediators, including advanced liquid chromatography-tandem mass spectrometry (LC/MS/MS) and gas chromatography-mass spectrometry (GC/MS).

The Core facility is located in the College’s Department of Pharmacology, Basic Science Building. Approximately 400 sq. ft. of air-conditioned laboratory space houses the instruments for LC/MS/MS and GC/MS analyses.

Core Instruments and service include:

  • MDS SCIEX Q-TRAP 3200 LC/MS/MS system (Applied Biosystems) interfaced with an Agilent 1200 HPLC system including autosampler and equipped with a Turbo V electrospray ion source for linear ion trap quadrupole analysis and PEAK Scientific N300DR gas generating system. The system is known for superior sensitivity, dynamic range, and reliability across a wide range of identification and quantification applications. This instrument is used to quantify eicosanoids of all metabolic pathways and other mediators (w3-derived). The sensitivity depend on the number of lipids being measure per run and ranged between 5-25 pg;
  • Finnigan LCQ Advantage LC/MS/MS system (Thermo Fisher Scientific) equipped with electrospray ionization (ESI) and atmospheric chemical ionization (APCI) interfaces connected to an Agilent 1100 HPLC system. The system is known for its robustness and has been a workhorse for measurements of lipid mediators in various In vitro preparations and in vivo samples when the requirement of sensitivity is not critical;
  • GCMS QP5050A (Shimadzu) mass spectrometer can operate in electron ionization (EI) or chemical ionization mode (with positive or negative ion detection) used for identification and quantification of eicosanoids and their derivatives as well as lipid mediators derived from w3 fatty acids including EPA and DHA in biological fluids and tissues;
  • Agilent 6890N/5973 GC/MS system (Agilent, Santa Clara, CA) has been set up for carbon monoxide (CO) analysis in samples from in vitro and in vivo studies.


Functions of the Mass Spectrometry Core:

  • Establish and ensure uniform standardized methods for preparing samples for analyses including sample collection, extraction and storage till analyses;
  • Provide reliable, reproducible and timely mass spectroscopy analyses in tissues and biological fluids (plasma, urine, etc.);
  • Maintain computerized records of raw data and analyzed results;
  • Assist investigators in analyzing data and developing new methods.



Michal Laniado Schwartzman, Ph.D.
Professor and Chair
The Department of Pharmacology
New York Medical College
Basic Science Building
Valhalla, NY 10595
Tel: 914-594-3116 or 594-594-4153
Fax: 914-594-4273
Email: michal_schwartzman@nymc.ed